JAL-3210 Barebones gradle/buildship/eclipse. See README

[jalview.git] / src / jalview / datamodel / DBRefSource.java

diff --git a/src/jalview/datamodel/DBRefSource.java b/src/jalview/datamodel/DBRefSource.java
index 71d6972..2f94884 100755 (executable)
--- a/src/jalview/datamodel/DBRefSource.java
+++ b/src/jalview/datamodel/DBRefSource.java
@@ -42,8 +42,7 @@ public class DBRefSource
   
   
   public static final String UNIPROT = "UNIPROT";
-
-  public static final String UP_NAME = "UNIPROT_NAME";
+  public static final String UP_NAME = "UNIPROT_NAME".toUpperCase();
   /**
    * Uniprot Knowledgebase/TrEMBL as served from EMBL protein products.
    */
@@ -57,18 +56,10 @@ public class DBRefSource
   public static final String EMBLCDSProduct = "EMBLCDSProtein".toUpperCase();
 
   public static final String PDB    = "PDB";
-
-  public static final String PFAM = "PFAM";
-
+  public static final String PFAM   = "PFAM";
   public static final String RFAM   = "RFAM";
   public static final String GENEDB = "GeneDB".toUpperCase();
 
-  public static final String PFAM_FULL = "PFAM (Full)";
-
-  public static final String PFAM_SEED = "PFAM (Seed)";
-
-  public static final String RFAM_SEED = "RFAM (Seed)";
-
   public static final String PDB_CANONICAL_NAME = PDB;
 
 
@@ -144,7 +135,7 @@ public class DBRefSource
 //       CODINGDBS, DNACODINGDBS, PROTEINDBS };
 //       
        public static final int PRIMARY_SOURCES_MASK = CODING_MASK | DNA_CODING_MASK | PROTEIN_MASK;
-
+       
     public static boolean isPrimarySource(String source)
     {
        return ((PRIMARY_SOURCES_MASK & getSourceKey(source)) != 0);